>input_sequence_84311
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------------ATGGCACGCGGTGTCGTCCTCCTGGCACTCATCTGCTGTTGGTTAGCATGCTCGGCGGCGGCCCAAGG
TAACTAATAAACCACTACTCGCAGCTCAGTTGCCGGATTA--GGATGATGATTGAT---GATACATGCAGTTGTTCCGGA
CGGACGCCGTGAGCCAAGGACTCCGCCGTCGCCACTGCCCGGGAACCAGAACCCGGTGGAGGCTCCGGCCGAGATTGCGT
CTCCACCACCGCCCTTGAAGACAACGGCGCTTGCGCCGCACCGCAAGACCCTGCAGCAGGCTGTTTCGAGCGTTCCTCAT
CTATGA--------------------------------------------------------------------------
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>chr3A_1_TraesCS3A01G011600
GCCTTAGAACACGTGTCACTGTCACACACTCTCCATGCCACCACCCTGCCTCCCGTGGTAGAAGAGGAATAACCTACTGG
TGCCGCTGCTACCGGAGCCACCGCCCGCACCTCAACACGACACCCAAAGAGCTCGCTGCACCTCTGCCATCACCAGCCCC
TCTAGCACCGGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGCCCTGC
TGCTATCTATCGCTGGAAGGGGCTTTCCCCCATCCTTCGGCTCCGGCAAGGGAGTAATGGGGGAGGATTTTTGCTCGGTG
GCAGTTACAGTTTCGCTGCTCTAGTTGCCCCTGGCAGTGTAGATGTTTTGTGTTCTTTTTATTTTGGAAATGATATATAG
CAAACGTCCCACAGGAGCGTAAATTTTTTTTTTTTGAGCGAACGGTCTATGGGACAATCGATCCTGAGTGCGAATCTCAA
CGTGGTGATATGTGGCAATCGCGGTGGGGCAATGTTTGCTCAAAGTCTGCACATGGCATCGTTCGCTCGCAGGAGGCTCC
AGAGCGAACAACATCGTTTACGAGAGGCTCCTAGAAAGCGCGATAATTTGTTCCACAGAAACTAGGGGAGCACGTTCTCT
CCTTATTAAGGTCCTTTCTTTTTCACTTCAACTATACCGTGACCGATGGGCCATTTAGTGGCGCGTCAGCTGAAAATGAT
GCTATGGTGCCGAACTACGCGTCGACGGGTGATGCACGCTGCATGACTTTGATAGCTGACTT-------------CTCTG
GTCAATAGATAAAAGACGAAAGAGGAAGATTTTTTCGTC-ACTATGGGCCACTGACGCTGTTCTCAAGCCAGCGGAACTT
TTCCAAGGTTGACGGACGGCAGACTTTGACC------CATAGTCTCCAAGACCGTACCACTACCGTATCTTATAATACAA
GGCTAGTCACAACGTT------GTACTATGCAGCTAGA-----GAGGATCATGGAGCGCTCTTCTTCTTCC---------
------------ATGGCACGCGGTGTCGTCCTCCTGGCACTCATCTGCTGTTGGTTAGCATGCTCGGCGGCGGCCCAAGG
TAACTAATAAACCACTACTCGCAGCTCAGTTGCCGGATTA--GGATGATGATTGAT---GATACATGCAGTTGTTCCGGA
CGGACGCCGTGAGCCAAGGACTCCGCCGTCGCCACTGCCCGGGAACCAGAACCCGGTGGAGGCTCCGGCCGAGATTGCGT
CTCCACCACCGCCCTTGAAGACAACGGCGCTTGCGCCGCACCGCAAGACCCTGCAGCAGGCTGTTTCGAGCGTTCCTCAT
CTATGAAGCACTGTCCCTCCGATATGTTCTTGTCTATGCATGTACTATTGCTGATGGTGCAAATTAAGGAAATAAATATA
GGGTGTGACTAGGGCACATCTAGATGTGACATA------ACTATGTGACATCTACG------------------------
--------------------------------------------------------------AGCCAGTTTCTCGTTGCC
GCACATAGCGCAGGCCTTCGCCACTGAGCCGGCTCACTGTACACACCCAAGTGCGTTGT------GTTTGAGCACGCAAA
GTCATAAAAAATGCAGCGCGTAAAGCTTAAGAGTACCATGTGTCCCACTTTCTTTTGTTAGCATAAAACACGACAAATTA
AGAAACATACGTGGATGCCTATAGGTTTAGAAACGGATGTAGTCAAGGTGAGAGCTTGTAGTTTAGTCCAGTACGTGTAA
AGCTCGACAGATGATTAGCATTTGTGAACAATTTTTAAAAAGGATCA--TTGTTTTAAATATTTGTACTTT-TTTTAAAA
CCCCAATCA---TTTTTCTAAACTTGCGAGCATTTTTTAAAAAACGTGAACTTAATTTGATATTTTTGACCA-TTTTTT-
AGAAACCCAAATAACTTTTGAAAAAACAAAATATTTTTTCAAATTCCAAACACTTTTTGAAACAGAA-AA-TG-AATAAT
AAAAATAAAATTAGAAATTATTGTTT-CAAAGA-AAAAAGTAAAAAGGAAACAAAATCTGGTGAAGAAAAAACA-AAAAA
G-GAATAAACCAGGAAAAACTGTGAAGAGAACAAAC--------AAACAAACCACAACAGTGTTCCTTTTTCGTAAATAG
TCCCCAATTCTCTTTTTCATAAATAGTCCCCAGTTCTCTTAAAAAATATGTGTGGGCG-AAGGGCCAAAAGACACATGCA
TGAACAAACTTGTAATCTATATGTATATTT-ACAAAACTACTTCACTAATTTGATGT-AAATCCTATTTACAAAAGTAAA
TGAAAGATGAAAATATGGCCATGCATTGAATGAAGAAAAATGTTTGTGTATGTATACA--------------------TA
AATGTTCATGCAATTTTTAGAAGTGCTCAT
>chr3B_621
ACTAGG--------------------------------------------------------------------------
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-----------------------------------------------------------------GGGAGCACGTTGTCT
CCCAGTTAGAGTGCTTTCTTTTTCTCTTCGGCTCTGCCGTGACCGACGGACCAATTAGTGGCCCGCCAGCTGAAAATGAT
GCTGCGGTGCCGAACTACGCGTCGACGGCTGATGCACGCTGCATG-------------ACTT-------------CCCAG
GTCTATAGATAAAGGACGAAAGAGGAAGATCTCTTCCATGATTATGGGCCACTGACGCTGTTGTCAAGCCAGACCAATTT
TTCCAAGGTTGACGGAAGGCAGACTTTGACCATCAACAAGAGTCTCCAAG-----------ACCGTCCCCTATAATACAA
GGCTAGTAATAGCGTT------ATACTATGCAGCTAGAGAGCGGAGGATCATGGAGCGCTCTTCTTCTTCC---------
------------ATGGCACACGGTGTTGCCCTCCTGGCGCTCATCTGCTGTTGGTTAGCATGCTCGGCGGCGGCCCAAGG
TAACTAATTAACCTCTATTCGCAGCTCAGTTGCCTCATTATAGGATGATGATTGATGATGATACATGCAGTTGTTCCGGA
CGGACGCCGTGAGCCAAGGGCTCCGCCGTCGCCACTGCCTGGGAACCAGAACCCGGTGGAGGCTCCAGCTGAGATTGCGT
CGCCACCACCGCCTATGGACACAACCGCGCTTGCGCCGCACCGCAAGACCCTGCAGCAGGCTGTTTCGAGCGTTCATCAT
GTATGAAGCACTGTCGCTCCGATATGTTCTTGTCTATGCATGTAC-----------------------------------
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>chr3D_623
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--------------------------------------------------------------TAGGGGACTAAGTTCTCT
CCCAATTAAAGTCATTTCTTTTTCACTTCAGCTCTGCCCTGACCGATGGACCAATTGGTGGCCCGCCTGCTGAAAATGAT
GCTGCGGTGCCGAACTACGCGTCGACGGCTGATGCACGCTGCATG-------------ACTTGATACATGACTTCCCCAA
GTCTATAGATAAAAGACGAAAGAGGAAGATCTTTTCCATGACTATGGGCCACTGACGGTGTTCTCAAGCCAGCCGAATTT
TTCCAAGGTTGACGGACGGCAGACTTTGACCATTAACCAGAGTCTCGAAGACCCTACCACTACCGTCCCCTATAATACAA
GGCTGGTAATAACGTTATACTAATACTATGCAGCTAGA-----GAAGATCAGGGAGCGCTCTTCTTTTTCTTCTTCTTCT
TCTTCTTCTTTTATGGCACGCGGTGTTGCCCCCATGGCACTCATCTGCTGTTGGTTAGCATGCTCGGCGGCGGCCCAAGG
TAAATAATTAGCTACTACTCGCAGCTCAGTTGCCTGATTA--GGATGATGACTGAT---GATACATGCAGTTGTTCCGGA
CGGACGCCGTGAGCCAAGGAGTCCGCCTGCGCCACTGCCAGGGAACCACAACCCGGTGGAGGCTCCAGCCGAGATTGCGT
CGCCACCACCGCCTATGGAGACAACGGCGCTTGCGCCGCACCGCAAGACCCTGCAGCAGGCTTTTTTGCGCGTTCCTCAT
CTATGAAGTACTGTCGCTCCGATATGTTCTTGTCTATGCATGTACGGTTGATGATAGTGCCAATTAAGCTAATAAATATA
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>chr3D_1383
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-------------------------------------------------------------------------------A
GGATGTGACTAGGGCACATCTAGATGTGACATAGACATAACTATGTCACATCTAAGATGATGTCACCCATGTTTGTTTCC
CGTTGACAACTTCCTCTGGCTGTTTCGTTGTTTGTTTAGTTTGTTTTTTTATTTGATTGTCCAGCCAGTTTCTCGTTGCC
GCACATAGCGCAGGCCTTCGCCACTGAGCCGGCTCACTGTACACACCCAAACGCGTTGT------GTTTGAGCACGCGAA
GTCATAAAAAATGCAGCGCGTAAAGCTTAAGAGTACCATGTGTGCCACTTTCTTTTGTTAGCATAAAACACGACAAATTA
AGAAACATACGTGGATGCCTATAGGTTTAGAAACGGATGTAGTCAAGGTGAGAGCTTGTAGTTTAGTCCAGTACGTGTAA
AGCTCGAGAGATGATTAGCATTTGTGAACAATTTTTAAAAAGGATCA--TTGTTTTAAATATTTGTACTTTTTTTTAAAA
CCACAATCA---TTTTTCTAAACTTGCGAGCATTTTTTGAAAAACGTGAACTTAATTTGATATTTTTGACCA-TTTTTTG
AGAAACCCAAATAACTTTTGAATTTT-------TTTTTTCAAATTCCAAATACTTTTTGAAACAGAA-AAATG-AATAAG
AAAAATAAAATTAGAAATTGTTGTTT-CAAAGAAAAAAAGTAAAAAGGAAACAAAATCTGGTGAAGAAAAAACA-AAAAA
G-GAATAAACCAGGAAAAACTGTGAAGAGAACAAAC--------AAACAAACCACAACAGTGTTCCTTTTTCGTAAATAG
TCCCCAATTCTCTTT-------------------------AAAAAATCTGTGTGGGCG-AAGGGCCAAAAGACACATGCA
TGAAAAAACTTGTAATCTATATGTATATTT-ACAAAACTACTTCACTAATTTGATAT-AAATCCTATTTACAAAAATAAA
CGAAAGATGAAAATATGGCCATGTATTGCATGAAGAAAAATGTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGT-
-ATGTTCATGCAATTTTTAGAAGTGCTCAT
>chr2A_1434
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--------------------------------------------------------------AGCCAGTTTCTCCTTGAC
ACAGATAGCGCAGGCCTTCGCCACTGAGCCGGCTCACTGTACGCACCCAAGTGCGTTGT------GTTTGAGCACACAAA
GTCATAAAAAATGCAGCGCGTAAAGCATAAGTGTACCCTGCGTGCCACTTTCTTTTGTTATCATCAAACACGACAAATTA
AGAAACATACGTGGATGTCTATTGGTTTAGAAACGGATGTAGTCAAGGTGAGAGCTTGTAGTTTAGTCCAGTACGTGTAA
AGCTCAAGAGATGACTAGCATTTGTGAACAATTTTTAAAAAAGAAACATTTTTAAAAAATATTTGTA---TGTTTTTAAA
CCATGATCA---TTTTTTCTAACTTGC-AGCATTTTTTGAAAAATGTGAACTTAATTTGATATTTTTGACCA-TTTTTG-
AGAAACCCAAATAACTTTTGAAAAAACAAAAG-TTTTTTCAAATTCCAAATACTTTTTGAAACAGAATAAATG-AATAAG
AAAAAGAAAATTATAAATTATTTTTT-CAATGAAAAAAGTAAAAAAGGAAACGAAATCTGGTGAAGAAAAAAAATGAAAA
AAGAATAAACAAGGAAAAA-TGTGAAGAGAACAAACAAACA---------------------------------------
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>chr1A_1436
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----------------------------------------------------------------CCAGTTTCTCCTTGCC
GCACATAGCACAGGGCTTCGCCACTGAGCCGGCTCACTGTACGCACCCAAGTGCGTTGTGTTTGAGTTTGAGCACGCGAA
GTCATAAAAAATGCAGCGCATAAATCTTAAGAGTACCCTGCGCGCCACTTTCTTTTGTTAGTATCAAACACGACAAATTA
AGAAACATACGTGGATGCCTATGGGTTTAGAAACGGATGTAGTCAAGGTGAGAGCTTGTAGTTTAGACCAGTACGTGTAA
AGCTCAAGAGATGATTAGCATTTGTGAACAATTTTTAGAGAAGGAACATTGTTTTTAAATATTTGTA---TTTTTTTAAA
ACACCAATCATTTTTTTCTGAACTTGCGAGCATTTTTCAAAAAACGTGAACTTATTTTGATATTTTTGACCATTTTTTG-
AGAAACCCAAATAATTTTTGAAAAAACAAAACAATTTTTCAAATTCCAAATACTTTTTAAAACAGAA-AAAATCAATAAG
AAAAAGAAAATTAGAAAAAAAATCAAAG-----AAAAAAGTAAAAAGGAAACGAAATCTGGTGAAGAAAAAAA-------
G-GAATAAACCAGGAA-----------------------------------------CATTGTTCCTTTTTCGTAAATAG
TCCCCAATTCTCTTT-------------------------AAAAAAAATTGTGTGCACAAAGGGCCAAAAGACACATGCA
TGAAAAAACTTCTAATCT-TATGTATATTT-AAAAAACTACTTCACAAGTTTGTTGTAAAATCCTATTTACAAAAATAAA
CGAAAGATGAAAATATGGTCATGTATTGCATAAAGAAAAATGTCCGTGTATATATATA--------------------T-
-ATGTTCATGCGACTTTAAGAAGTGCTCAT
>chr4A_1447
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---------------------------------------------------------------------------TTGCC
GCATACAGCGCAGGGCTTCGCCACTGAGCCGGCCCATTGTACGCACCCAAGAGCGTTGTGTTTGAG------CATGCGAA
CTCAT-AAAAATGCACCGCTTAAAGCTTATGAGTACCCTGCGTGTCAGTTTCTTTTGTTAGCATCAAACACGACAAACTA
AGAAACGTACGTGAGATGCC-TGGGTTTAGAAACGAATGTGGTCAAGGTGAGAGCTTGTACTTTAGTCCAATACGTGTAA
AGCTCAAGAGATGATTAGCATTTGTGAACAATTTTTAAAAAGAGA--ATTTGTTTTAAACATTTGAACT-TTTTTATAAA
ACGCAATCA--TTTTTTCTAAACTTGCGAGCATTTTTTGAAAGACATGTACTTATTTTGATATTTTTGACCA--------
--------AAATAGCTTTTGAAAAAACAAAAGAATTTTTCAAAATCCAAATACCTTTTGAAACATAAAAACA--AATAAG
TAAAATAAAATTACAAATTTGTTTTT-AAAT-AAAAAAAGTAAAAAGGAAACGAAATCATGTGAAGAAAAAAAGGGAAAA
G-GAATAAATCAGGAAAAC-CATGAAGAGAACAAACAAACAAAC------------------------------------
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>chr7A_1536
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----------ATGCAGAACGTAAAGCTTAAGAGTACCATGCGTGTCACTTTCTTTTGTTAGCATCAAACACGACAAATTA
AGAAACATACGTGGGTGCCTATAGGTTTAGAAACTGGTGTAGTCAAGGTGAGAGCTTGTAGTTTAGTCCAGTACGTGTAA
AGCTCAAGAGATGATTAGCATTTGTGAACATTTTTTAAAAAGGATCA--TTGTTTTAAATATTTGTACC-TTTTTTAAAA
CCACGATAA---TTTTTCGAAACTTGCGAGCATTTTTTGAAAAAAATGAACTTAATCTGATATG-TTGACCATTTTTTG-
AGAAACCCAAATAACTA---AAAAAACGAAAGAATTTTTCAAATTCCAAATACTTTTTGAAACAGAA-AAAGG-------
-------AAATTAGAAATTACTTCTTCAAAG-AAAAAGAGTAAAAAGGAAACAAAATCTGGCGAAGAAAAAAATGAAAAA
G-GAATAAACCAGGAAAAACTGTGAAGAGAACAAACAAACAAACAAACAAACGACAACATTGTTCCTTTTTCGTAAATAG
TCCCCAATTCTCTTT-------------------------AAAAAATCAGTGTGGGCG-AAGGGCCAAAAGACACATGCA
TGAAAAAACTTCTAATCTATATGTATATTTTAAAAAACTACTTCACTAGCTTGATGT-AAATCCTATTTACGAAAATAAA
AGAAAGATGAAAATATGGTCATGTATTGCATGAAGAAAAATGTTTGGGTGTCTATATG--------------------T-
-A---TCATGCAATTTTAACAAGTGCTCAT
>SNPs
S-SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS------------------
--SS-----S--------------------S--S-S-------------S---S--------S--S--------------
---SS-----------------------S----------------SSSSSSSSSSSSS------------------S-S-
---S--------------------------S-----SSS----------------------------------S---S--
---------------------------------------S-------------S------------SS-S----------
-------S-S------------S---------------------------------------------------------
--------------------------S-S---------------------------------------------------
--------S-------------------------S---------------------------------------------
---------------------------------------S--------------------------S-------------
-S-----------SS--S--------------------------------------------------------------
---------------S-----------------------------SS---S----S----S-------SS----------
--S-------------------------------------------S-------S-------------------------
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-------------------------------------------S------------------------------------
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-------S------------------------------------------------------------------------
--S-----------------------------------------------------------------------------
-------------------------------S------------------S----------------------------S
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---------------SSSSSSSSSSSSSSSSSSSSSSSSS----------------------------------------
----S----------------------------------------------------------------------S----
S----------------------S----S---------------------------S----------------------S
S-----------------------------
>forward_600
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--------------------CGAGAGGCTCCTAGAAAGCG----------------------------------------
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>reverse_1487
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----------------------------------------------GACATCTACGAGCCAGTTTCTC------------
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